Complete nucleotide sequence and organization of the mitogenome of the silk moth Caligula boisduvalii (Lepidoptera: Saturniidae) and comparison with other lepidopteran insects

Gene

Volumn 413, Issue 1-2, 2008, Pages 49-57

  Hong, Mee Yeon ^a   Lee, Eun Mee ^b   Jo, Yong Hun ^a   Park, Hae Chul ^b   Kim, Seong Ryul ^b   Hwang, Jae Sam ^b   Jin, Byung Rae ^c   Kang, Pil Don ^c   Kim, Ki Gyoung ^d   Han, Yeon Soo ^a   Kim, Iksoo ^a  

^a Chonnam National University   (South Korea)

^b National Institute of Animal Science   (South Korea)

^c Dong A University   (South Korea)

^d National Institute of Biological Resources   (South Korea)

Author keywords

Caligula boisduvalii; Lepidoptera; Mitochondrial genome; Saturniidae; Silk moth

Indexed keywords

ISOLEUCINE; MESSENGER RNA; METHIONINE; TRANSFER RNA;

ARTICLE; ATP6 GENE; ATP8 GENE; CODON; CONTROLLED STUDY; DNA FLANKING REGION; GENE; GENE STRUCTURE; INSECT GENETICS; LEPIDOPTERA; MITOCHONDRIAL GENE; MOTH; ND4L GENE; ND6 GENE; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SILKWORM;

ANIMALS; AT RICH SEQUENCE; BASE SEQUENCE; CODON; DNA, MITOCHONDRIAL; GENES, INSECT; GENOME, INSECT; GENOME, MITOCHONDRIAL; INSECT PROTEINS; MOTHS; NUCLEIC ACID CONFORMATION; PHYLOGENY; SEQUENCE HOMOLOGY, NUCLEIC ACID; SPECIES SPECIFICITY;

ANTHERAEA PERNYI; BOMBYCIDAE; BOMBYCOIDEA; BOMBYX MORI; HEXAPODA; LEPIDOPTERA; OBTECTOMERA; PYRALOIDEA; SATURNIA BOISDUVALII; SATURNIIDAE;

EID: 41249094990     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2008.01.019     Document Type: Article

References (51)

1. Abascal F., Zardoya R., and Posada D. ProTest: selection of best-fit models of protein evolution. Bioinformatics 21 (2005) 2104-2105
2. Abascal F., Posada D., and Zardoya R. MtArt: a new model of amino acid replacement for arthropoda, Mol. Biol. Evol. 24 (2007) 1-5
3. Adachi J., and Hasegawa M. Model of amino acid substitution in proteins encoded by mitochondrial DNA. J. Mol. Evol. 42 (1996) 459-468
4. Akaike H. A new look at the statistical model identification. IEEE Trans. Autom. Contr. 19 (1974) 716-723
5. Arunkumar K.P., Metta M., and Nagaraju J. Molecular phylogeny of silk moths reveals the origin of domesticated silk moth, Bombyx mori from Chinese Bombyx mandarina and paternal inheritance of Antheraea proylei mitochondrial DNA. Mol. Phylogenet. Evol. 40 (2006) 419-427
6. Bae J.S., Kim I., Sohn H.D., and Jin B.R. The mitochondrial genome of the firefly, Pyrocoelia rufa: complete DNA sequence, genome organization, and phylogenetic analysis with other insects. Mol. Phylogenet. Evol. 32 (2004) 978-985
7. Bibb M.J., Van Etten R.A., Wright C.T., Walberg M.W., and Clayton D.A. Sequence and gene organization of mouse mitochondrial DNA. Cell 26 (1981) 167-180
8. Boore J.L. Animal mitochondrial genomes. Nucleic Acids Res. 27 (1999) 1767-1780
9. Boore J.L., and Brown W.M. Complete DNA sequence of the mitochondrial genome of the black chiton, Katharina tunicata. Genetics 138 (1994) 423-443
10. Boore J.L., lavrov D., and Brown W.M. Gene translocation links insects and crustaceans. Nature 393 (1998) 667-668
11. Brehm A., et al. Structure and evolution of the mitochondrial DNA complete control region in the Drosophila subobscura subgroup. Insect Mol. Biol. 10 (2001) 573-578
12. Brodsky L.I., Vasiliev A.V., Kalaidzidis Y.L., Osipov Y.S., Tatuzov A.R.L., and Feranchuk S.I. GeneBee: the program package for biopolymer structure analysis. Dimacs. 8 (1992) 127-139
13. Castresana J. Selection of conserved blocks from multiple alignments for their use in phylogenetic tool. Curr. Opin. Genet. Dev. 8 (2000) 668-674
14. Cha S.Y., et al. The complete nucleotide sequence and gene organization of the mitochondrial genome of the bumblebee, Bombus ignitus (Hymenoptera: Apidae). Gene 392 (2007) 206-220
15. Clary D.O., and Wolstenholme D.R. The mitochondrial DNA molecule of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code. J. Mol. Evol. 22 (1985) 252-271
16. Clary D.O., and Wolstenholme D.R. Drosophila mitochondrial DNA: conserved sequences in the A + T-rich region and supporting evidence for a secondary structure model of the small ribosomal RNA. J. Mol. Evol. 25 (1987) 116-125
17. Coates B.S., Sumerford D.V., Hellmich R.L., and Lewis L.C. Partial mitochondrial genome sequences of Ostrinia nubilalis and Ostrinia furnicalis. Int. J. Biol. Sci. 1 (2005) 13-18
18. Crozier R.H., and Crozier Y.C. The mitochondrial genome of the honeybee Apis mellifera: complete sequence and genome organization. Genetics 133 (1993) 97-117
19. Dotson E.M., and Beard C.B. Sequence and organization of the mitochondrial genome of the Chagas disease vector, Triatoma dimidiata. Insect Mol. Biol. 10 (2001) 205-215
20. Fenn J.D., Cameron S.L., and Whiting M.F. The complete mitochondrial genome sequence of the mormon cricket (Anabrus simplex: Tettigoniidae: Orthoptera) and an analysis of control region variability. Insect Mol. Biol. 16 (2007) 239-252
21. Guindon S., Lethiec F., Duroux P., and Gascuel O. PHYML Online-a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res. 33 (2005) W557-W559
22. Hatzoglou E., Rodakis G.C., and Lecanidou R. Comlete sequence and gene organization of the mitochondrial genome of the land snail Albinaria coerulea. Genetics 140 (1995) 1353-1366
23. Huelsenbeck J.P., and Ronquist F. MrBayes: Bayesian inference of phylogeny. Bioinformatics 17 (2001) 754-755
24. Hwang J.S., et al. Molecular genetic relationships between Bombycidae and Saturniidae based on the mitochondria DNA encoding of large and small rRNA. Genet. Anal. 15 (1999) 223-228
25. Inohira K., Hara T., and Matsuura E.T. Nucleotide sequence divergence in the A + T-rich region of mitochondrial DNA in Drosophila simulans and Drosophila mauritiana. Mol. Biol. Evol. 14 (1997) 814-822
26. Kim I., et al. The complete nucleotide sequence and gene organization of the mitochondrial genome of the oriental mole cricket, Gryllotalpa orientalis (Orthoptera: Gryllotalpidae). Gene 353 (2005) 155-168
27. Kim I., et al. The mitochondrial genome of the Korean hairstreak, Coreana raphaelis (Lepidoptera: Lycaenidae). Insect Mol. Biol. 15 (2006) 217-225
28. Lanave C., Preparata G., Saccone C., and Serio G. A new method for calculating evolutionary substitution rates. J. Mol. Evol. 20 (1984) 86-93
29. Lee S.M. Notes on the Brahmaeidae and Attacidae (Lep.) of Korea. Korean J. Ent. 5 (1976) 33-34 (Korean language with English abstract)
30. Lee E.S., Shin K.S., Kim M.S., Park H., Cho S., and Kim C.B. The mitochondrial genome of the smaller tea tortix Adoxophyes honmai (Lepidoptera: Tortricidae). Gene 373 (2006) 52-57
31. Martinez L.M., Almagro J.C., Coll J.L., and Herrera R.J. Sequence variability in the fibroin-H intron of domesticated and wild silk moths. Insect Biochem. Mol. Biol. 34 (2004) 343-352
32. Minet J. Tentative reconstruction of the ditrysian phylogeny (Lepidoptera: Glossata). Entomol. Scand. 22 (1991) 69-95
33. Mitchell S.E., Cockburn A.F., and Seawright J.A. The mitochondrial genome of Anopheles quadrimaculatus species A: complete nucleotide sequence and gene organization. Genome 36 (1993) 1058-1073
34. Monforte A., Barrio E., and Latorre A. Characterization of the length polymorphism in the A + T-rich region of the Drosophila obscura group species. J. Mol. Evol. 36 (1993) 214-223
35. Nam S.H. Illustrated Flora and Fauna of Korea vol. 26 (1982), Samhwa Press, Seoul 220-232 pp., (in Korean language with English abstract)
36. Ojala D., Merkel C., Gelfand R., and Attardi G. The tRNA genes punctuate the reading of genetic information in human mitochondrial DNA. Cell 22 (1980) 393-403
37. Ojala D., Montoya J., and Attardi G. tRNA punctuation model of RNA processing in human mitochondria. Nature 290 (1981) 470-474
38. Okimoto R., Macfarlane J.L., Clary D.O., and Wolstenholme D.R. The mitochondrial genomes of two nematodes, Caenorhabditis elegans and Ascaris suum. Genetics 130 (1992) 471-498
39. Park K.T., Kim S.S., Tshistjakov Y.A., and Kwon Y.D. Insects of Korea Series 4. Illustrated Catalogue of Moths in Korea (I) (Sphingidae, Bombicoidea, Notodontidae) (1999) Jeonghaengsa, Seoul, Korea, 159-160 pp. (Korean language).
40. Posada D., and Crandal K.A. Modeltest: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
41. Rand D.M., and Harrison R.G. Molecular population genetics of mtDNA size variation in crickets. Genetics 121 (1989) 551-569
42. Schmidt H.A., Strimmer K., and von Haeseler A. TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18 (2002) 502-504
43. Schultheis A.S., Weigt L.A., and Hendricks A.C. Arrangement and structural conservation of the mitochondrial control region of two species of Plecoptera: utility of tandem repeat-containing regions in studies of population genetics and evolutionary history. Insect Mol. Biol. 11 (2002) 605-610
44. Simon C., Frati F., Beckenbach A., Crespi B., Liu H., and Flook P. Evolution, weighting, and phylogenetic utility of mitochondrial gene sequences and a compilation of conserved polymerase chain reaction primers. Ann. Entomol. Soc. Am. 87 (1994) 651-701
45. Tuskes P.M., Tuttle J.P., and Collins M.M. The Wild Silk Moths of North America (1996), Cornell University Press
46. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., and Higgins D.G. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24 (1997) 173-216
47. Wernersson R., and Pedersen A.G. Multiple alignment of coding DNA from aligned amino acid sequences. Nucleic Acids Res. 31 (2003) 3537-3539
48. Yoshitake N. Phylogenetic aspects on the origin of Japanese race of the silkworm Bombyx mori L. J. Seric. Sci. Jpn. 37 (1968) 83-87
49. Yukuhiro K., Sezutsu H., Itoh M., Shimizu K., and Banno Y. Significant levels of sequence divergence and gene rearrangements have occurred between the mitochondrial genomes of the wild mulberry silk moth, Bombyx mandarina, and its close relative, the domesticated silk moth, Bombyx mori. Mol. Biol. Evol. 19 (2002) 1385-1389
50. Zhang D.X., and Hewitt G.M. Insect mitochondrial control region: a review of its structure, evolution and usefulness in evolutionary studies. Biochem. Syst. Evol. 25 (1997) 99-120
51. Zhang D., Szymura J.M., and Hewitt G.M. Evolution and structural conservation of the control region of insect mitochondrial DNA. J. Mol. Evol. 40 (1995) 382-391